Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )

Length:

88

Sequences:

523

Seq/Len:

5.94

HH_delta:

0.833 (20Jul13)

GREMLIN Results:
Residue pairs sorted by strength in covariance:Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

i

j

Raw Score

Scaled Score

28_T

31_R

0.86564

4.827

6_E

11_R

0.48931

2.729

31_R

62_G

0.43756

2.440

31_R

59_S

0.4012

2.237

64_S

71_T

0.3903

2.177

58_K

72_R

0.38639

2.155

28_T

62_G

0.35932

2.004

83_A

86_V

0.32583

1.817

80_R

83_A

0.31628

1.764

59_S

62_G

0.31594

1.762

27_K

63_I

0.3135

1.748

27_K

31_R

0.29513

1.646

83_A

87_K

0.2896

1.615

64_S

69_K

0.25722

1.434

6_E

9_G

0.2496

1.392

67_I

70_R

0.24144

1.346

58_K

64_S

0.22753

1.269

30_N

48_Q

0.22717

1.267

27_K

30_N

0.22499

1.255

48_Q

75_Y

0.22227

1.239

64_S

68_G

0.21235

1.184

26_T

30_N

0.20952

1.168

3_Q

20_E

0.2087

1.164

6_E

10_Q

0.20689

1.154

39_R

83_A

0.20491

1.143

13_M

17_D

0.20361

1.135

54_L

58_K

0.20281

1.131

58_K

63_I

0.19798

1.104

16_E

76_L

0.19594

1.093

82_Y

85_L

0.19204

1.071

44_K

87_K

0.18866

1.052

80_R

84_M

0.18681

1.042

14_T

76_L

0.186

1.037

5_I

13_M

0.18561

1.035

40_F

81_G

0.18449

1.029

52_E

56_E

0.17991

1.003

17_D

20_E

0.17596

0.981

68_G

71_T

0.17551

0.979

30_N

34_K

0.1754

0.978

32_N

35_R

0.17312

0.965

58_K

68_G

0.17237

0.961

56_E

66_N

0.17232

0.961

80_R

88_I

0.16915

0.943

52_E

55_K

0.16896

0.942

80_R

87_K

0.16885

0.942

33_F

77_F

0.16697

0.931

37_K

46_Y

0.16612

0.926

80_R

86_V

0.16605

0.926

15_D

77_F

0.16398

0.914

35_R

62_G

0.16345

0.911

39_R

79_E

0.16323

0.910

21_L

86_V

0.16267

0.907

18_L

45_D

0.16181

0.902

67_I

71_T

0.16007

0.893

66_N

70_R

0.15898

0.887

22_Y

86_V

0.15526

0.866

51_G

54_L

0.15415

0.860

84_M

88_I

0.15317

0.854

4_I

8_R

0.15276

0.852

6_E

16_E

0.15183

0.847

66_N

69_K

0.15139

0.844

19_A

22_Y

0.15019

0.838

23_G

87_K

0.14751

0.823

54_L

71_T

0.14589

0.814

49_L

57_L

0.14572

0.813

51_G

73_N

0.14542

0.811

68_G

72_R

0.14513

0.809

4_I

9_G

0.14462

0.806

36_N

40_F

0.14403

0.803

10_Q

20_E

0.14346

0.800

4_I

13_M

0.14191

0.791

19_A

29_I

0.14058

0.784

83_A

88_I

0.14047

0.783

22_Y

82_Y

0.13972

0.779

31_R

34_K

0.13882

0.774

49_L

76_L

0.13877

0.774

26_T

74_L

0.13867

0.773

17_D

25_E

0.13857

0.773

28_T

32_N

0.13845

0.772

58_K

61_L

0.13817

0.771

13_M

21_L

0.13783

0.769

57_L

66_N

0.13555

0.756

24_V

32_N

0.13503

0.753

39_R

87_K

0.13502

0.753

29_I

39_R

0.13469

0.751

3_Q

8_R

0.13413

0.748

60_Q

63_I

0.13386

0.746

57_L

68_G

0.13319

0.743

78_T

81_G

0.13275

0.740

18_L

82_Y

0.13268

0.740

56_E

67_I

0.13261

0.739

15_D

19_A

0.13239

0.738

16_E

70_R

0.13221

0.737

8_R

53_E

0.13205

0.736

21_L

24_V

0.13145

0.733

54_L

73_N

0.13129

0.732

14_T

74_L

0.13119

0.732

3_Q

17_D

0.13118

0.732

30_N

75_Y

0.13087

0.730

27_K

34_K

0.12962

0.723

29_I

88_I

0.12897

0.719

11_R

20_E

0.12787

0.713

3_Q

16_E

0.12779

0.713

45_D

82_Y

0.1274

0.710

82_Y

87_K

0.12631

0.704

58_K

69_K

0.1245

0.694

27_K

58_K

0.12373

0.690

85_L

88_I

0.12292

0.685

28_T

59_S

0.12256

0.683

32_N

88_I

0.12212

0.681

37_K

51_G

0.12141

0.677

46_Y

87_K

0.1211

0.675

6_E

87_K

0.1209

0.674

60_Q

64_S

0.12075

0.673

21_L

83_A

0.12017

0.670

45_D

80_R

0.11965

0.667

58_K

71_T

0.11899

0.664

63_I

69_K

0.11862

0.661

14_T

46_Y

0.11825

0.659

59_S

63_I

0.11639

0.649

57_L

67_I

0.11594

0.647

50_T

70_R

0.11587

0.646

45_D

81_G

0.11567

0.645

15_D

30_N

0.11558

0.645

45_D

77_F

0.11524

0.643

31_R

35_R

0.11451

0.639

Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.

HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits: Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)